If they are platform-internal records as the forum posting suggested, there is no need to replicate them. One architectural shift when moving to the cloud is to identify what does not need to be replicated because the replication target will never be used to restore the entire platform as it may be in an on-premise solution. You may want to discuss this with your Salesforce Admin or Salesforce Support.

If the two objects that are not replicating are not platform-internal, you could try first outputting them to a flat file and then do a MERGE into SQL server from the flat file. The reason for the flat file is to avoid any potential governance limits.